Daniel Bogema
Molecular Epidemiologist at NSW Department of Primary Industries and Regional Development
New South Wales, Australia
Summary
🤩
Rockstar🎓
Top SchoolDaniel Bogema is a molecular epidemiologist with nine years of experience applying molecular biology, genomics and proteomics to animal and agricultural pathogen surveillance at NSW Department of Primary Industries. He combines a PhD in molecular biology with hands-on diagnostic test design, validation and field-relevant assay development from roles spanning academia and government, including postdoctoral work on Theileria orientalis and insecticide-resistance tracking in agricultural pests. Comfortable at the bench and in bioinformatics, he contributes to the Bioconda packaging ecosystem—helping automate and maintain conda recipes for key bioinformatics tools—so his work bridges experimental and computational reproducibility. Based in New South Wales, he has a track record of turning mechanistic research into practical diagnostic solutions that support biosecurity and industry. Colleagues describe him as methodical and adaptable, able to translate complex molecular data into operational surveillance tools.
9 years of coding experience
4 years of employment as a software developer
Doctor of Philosophy, Molecular Biology, Biochemistry, Doctor of Philosophy, Molecular Biology, Biochemistry at University of Wollongong
Github Skills (8)
bioinformatics10
conda10
bash10
package-management10
python9
yaml8
dockers7
docker7
Programming languages (3)
Github contributions (5)
bioconda/bioconda-recipes
Feb 2017 - Jan 2019
Conda recipes for the bioconda channel.
Role in this project:
Automation Engineer / Build & Release Engineer
Automation Engineer / Build & Release EngineerContributions:22 commits, 26 PRs, 20 pushes in 1 year 11 months
Contributions summary:Daniel primarily contributed to the creation and modification of recipes for the bioconda channel, a package management system for bioinformatics tools. Their work involved creating build scripts (build.sh) and post-link scripts (post-link.sh), modifying setup.py, and adjusting metadata (meta.yaml) files. The user's contributions focused on packaging and distributing bioinformatics tools, including blobtools, asqcan, and snpiphy, ensuring their proper installation and functionality within the conda environment.
recipescondabiocondabioinformaticspackage-management
bogemad/cervus_parse
Nov 2018 - Mar 2021
A script for parsing zipped vcf files (from an Ion Torrent run) to a genotype format for Cervus
Contributions:3 releases, 9 commits, 2 PRs in 2 years 3 months
scriptvcf-filesgenotypetorrention
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